PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis lyrata	scaffold_7	17	CH_aly_86	2	2	0.000378824
Arabidopsis thaliana	4	17	CH_ath_185	3	3	0.000000446389
Brassica rapa	A08	17	CH_bra_95	3	3	0.00000061238
Capsella rubella	scaffold_7	17	CH_cru_147	3	3	0.000000489351
Eucalyptus grandis	scaffold_4	17	CH_egr_447	4	4	0.0000000986579
Eucalyptus grandis	scaffold_5	17	CH_egr_104	9	13	1.55341e-19
Eucalyptus grandis	scaffold_6	17	CH_egr_274	5	5	0.000000000121475
Eucalyptus grandis	scaffold_8	17	CH_egr_240	7	19	0.00000000000852191
Eucalyptus grandis	scaffold_9	17	CH_egr_446	4	4	0.0000000986579
Gossypium raimondii	Chr07	17	CH_gra_186	3	3	0.00000196163
Gossypium raimondii	Chr08	17	CH_gra_187	3	3	0.00000196163
Malus domestica	1	17	CH_mdo_19	5	7	0.0000000000110795
Malus domestica	15	17	CH_mdo_51	4	5	0.00000000714547
Malus domestica	17	17	CH_mdo_201	3	7	0.000127358
Oryza sativa ssp. japonica	9	17	CH_osa_71	4	4	0.0000000000683776
Populus trichocarpa	Chr09	17	CH_ptr_107	5	7	0.0000000000258679
Prunus persica	scaffold_4	17	CH_ppe_387	3	4	0.000307726
Prunus persica	scaffold_5	17	CH_ppe_190	4	4	0.000000102708
Prunus persica	scaffold_6	17	CH_ppe_3	23	37	2.48983e-55
Prunus persica	scaffold_6	18	CH_ppe_3	23	37	2.48983e-55
Solanum lycopersicum	ch11	17	CH_sly_174	5	38	0.000000123294
Vitis vinifera	chrUn	17	CH_vvi_218	4	7	0.0000018858
Vitis vinifera	chrUn	17	CH_vvi_37	12	64	1.29337e-19
Vitis vinifera	chrUn	17	CH_vvi_162	4	4	0.0000000540289
Vitis vinifera	chrUn	18	CH_vvi_33	12	64	1.29337e-19

Exp id	Data type	Data filter	Min genes cluster	Max genes cluster	Max cluster size	E-value	Tandems removal
1	GO	Primary GO data only.	2	30	80	0.001	X
2	GO	Primary and orthology projected GO data.	2	30	80	0.001	X
3	GO	All GO data.	2	30	80	0.001	X
4	GO	Primary GO data only.	10	150	300	0.001	X
5	GO	Primary and orthology projected GO data.	10	150	300	0.001	X
6	GO	All GO data.	10	150	300	0.001	X
7	GO	Primary GO data only.	2	30	80	0.001	V
8	GO	Primary and orthology projected GO data.	2	30	80	0.001	V
9	GO	All GO data.	2	30	80	0.001	V
10	GO	Primary GO data only.	10	150	300	0.001	V
11	GO	Primary and orthology projected GO data.	10	150	300	0.001	V
12	GO	All GO data.	10	150	300	0.001	V
13	InterPro	No filter applied.	2	30	80	0.001	X
14	InterPro	No filter applied.	10	150	300	0.001	X
15	InterPro	No filter applied.	2	30	80	0.001	V
16	InterPro	No filter applied.	10	150	300	0.001	V
17	MapMan	No filter applied.	2	30	80	0.001	X
18	MapMan	No filter applied.	10	150	300	0.001	X
19	MapMan	No filter applied.	2	30	80	0.001	V
20	MapMan	No filter applied.	10	150	300	0.001	V